Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HPK20_RS12260 Genome accession   NZ_CP053664
Coordinates   2657024..2657893 (+) Length   289 a.a.
NCBI ID   WP_171933912.1    Uniprot ID   -
Organism   Vibrio fluvialis strain A8     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2652024..2662893
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPK20_RS12240 (HPK20_12260) nadC 2652478..2653365 (+) 888 WP_171933910.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HPK20_RS12245 (HPK20_12265) pilA 2653597..2654016 (+) 420 WP_024374400.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  HPK20_RS12250 (HPK20_12270) pilB 2654022..2655710 (+) 1689 WP_171934101.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPK20_RS12255 (HPK20_12275) pilC 2655746..2656972 (+) 1227 WP_171933911.1 type II secretion system F family protein Machinery gene
  HPK20_RS12260 (HPK20_12280) pilD 2657024..2657893 (+) 870 WP_171933912.1 A24 family peptidase Machinery gene
  HPK20_RS12265 (HPK20_12285) coaE 2657896..2658504 (+) 609 WP_171933913.1 dephospho-CoA kinase -
  HPK20_RS12270 (HPK20_12290) zapD 2658537..2659277 (+) 741 WP_020332196.1 cell division protein ZapD -
  HPK20_RS12275 (HPK20_12295) yacG 2659332..2659529 (+) 198 WP_020332195.1 DNA gyrase inhibitor YacG -
  HPK20_RS12280 (HPK20_12300) - 2659627..2660831 (+) 1205 WP_171933914.1 IS3 family transposase -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32274.35 Da        Isoelectric Point: 6.4655

>NTDB_id=446136 HPK20_RS12260 WP_171933912.1 2657024..2657893(+) (pilD) [Vibrio fluvialis strain A8]
MDIFNFYPWLFPTLATVLGLIIGSFLNVVIYRLPKIMEREWRQECAESFPEYHIEPPQGILTLSTPRSTCPHCDTPIRVI
DNIPVLSWLLLRGKCSNCQGPISARYPLIELLTASCSLLIALQFGFSWFAVAMLFFTYTLIAATFIDFDTMLLPDQLTLP
LLWAGIALALAGISPISLQDAVIGAIAGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLLIIILMSSLVGL
VFGLIQLRLQKRGIDKAFPFGPYLAIAGWLSLLFGHDIAGWYFHSVLGF

Nucleotide


Download         Length: 870 bp        

>NTDB_id=446136 HPK20_RS12260 WP_171933912.1 2657024..2657893(+) (pilD) [Vibrio fluvialis strain A8]
ATGGACATTTTTAATTTTTACCCCTGGCTGTTTCCTACGCTGGCGACAGTGCTGGGGTTAATTATCGGCAGTTTCCTCAA
TGTGGTGATTTATCGCCTGCCGAAAATCATGGAGCGTGAGTGGCGTCAGGAGTGTGCGGAATCCTTTCCCGAGTATCATA
TTGAGCCGCCTCAGGGCATTTTAACGCTGAGCACGCCACGTTCCACCTGCCCGCATTGCGATACGCCGATCCGGGTTATC
GACAACATTCCGGTACTGAGCTGGCTGTTGCTGCGTGGTAAATGCTCGAATTGTCAGGGCCCTATCAGCGCGCGTTATCC
ACTGATTGAACTGCTGACGGCTTCATGCAGCCTCTTGATTGCGCTGCAATTTGGTTTTAGCTGGTTTGCCGTTGCCATGC
TGTTCTTTACCTATACGCTGATTGCGGCAACCTTCATTGATTTCGATACGATGCTGCTGCCGGATCAGCTTACTCTGCCC
CTACTCTGGGCTGGTATTGCACTGGCATTGGCGGGCATCAGCCCGATTTCGCTACAAGATGCGGTGATTGGTGCGATAGC
GGGTTATCTGTCGTTATGGTCGGTGTACTGGCTGTTTAAGCTACTGACAGGCAAAGAAGGCATGGGCTATGGCGACTTTA
AGCTGTTAGCGGCTCTCGGTGCCTGGCTGGGATGGCAGCAACTACTGATCATCATTCTGATGTCATCTCTGGTTGGACTG
GTGTTCGGCCTCATTCAACTGCGTCTGCAAAAGCGCGGCATTGATAAAGCATTTCCCTTCGGGCCTTATCTGGCGATTGC
AGGCTGGTTATCCCTGCTGTTTGGTCATGACATTGCGGGTTGGTATTTTCATTCGGTATTAGGATTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  pilD Vibrio cholerae strain A1552

78.472

99.654

0.782
  pilD Vibrio campbellii strain DS40M4

77.778

99.654

0.775
  pilD Acinetobacter baumannii D1279779

52.92

94.81

0.502
  pilD Acinetobacter nosocomialis M2

52.555

94.81

0.498
  pilD Neisseria gonorrhoeae MS11

50.558

93.08

0.471